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Yorodumi- PDB-1wyh: Solution structure of the LIM domain from human Skeletal muscle L... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1wyh | ||||||
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Title | Solution structure of the LIM domain from human Skeletal muscle LIM-protein 2 | ||||||
Components | Skeletal muscle LIM-protein 2 | ||||||
Keywords | METAL BINDING PROTEIN / LIM / Structural Genomics / RIKEN Structural Genomics/Proteomics Initiative / RSGI / NPPSFA / National Project on Protein Structural and Functional Analyses | ||||||
Function / homology | Function and homology information muscle organ development / stress fiber / transcription coregulator activity / Z disc / actin binding / actin cytoskeleton organization / focal adhesion / metal ion binding / nucleus Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / torsion angle dynamics | ||||||
Authors | Niraula, T.N. / Tochio, N. / Koshiba, S. / Inoue, M. / Kigawa, T. / Yokoyama, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
Citation | Journal: To be Published Title: Solution structure of the LIM domain from human Skeletal muscle LIM-protein 2 Authors: Niraula, T.N. / Tochio, N. / Koshiba, S. / Inoue, M. / Kigawa, T. / Yokoyama, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1wyh.cif.gz | 385.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1wyh.ent.gz | 331.5 KB | Display | PDB format |
PDBx/mmJSON format | 1wyh.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/wy/1wyh ftp://data.pdbj.org/pub/pdb/validation_reports/wy/1wyh | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 7503.283 Da / Num. of mol.: 1 / Fragment: LIM domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Description: Cell-free protein synthesis / Gene: SLIM2 / Plasmid: P040830-07 / References: UniProt: Q13643 |
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#2: Chemical |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: 2.09mM LIM domain U-13C, 15N; 20mM d-Tris-HCl; 100mM NaCl; 1mM d-DTT; 0.02% NaN3; 0.001mM ZnCl2; 10% D2O Solvent system: 90% H2O/10% D2O |
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Sample conditions | Ionic strength: 200 / pH: 7.0 / Pressure: ambient / Temperature: 296 K |
-NMR measurement
NMR spectrometer | Type: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 900 MHz |
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-Processing
NMR software |
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Refinement | Method: torsion angle dynamics / Software ordinal: 1 | ||||||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: target function, structures with the least restraint violations Conformers calculated total number: 100 / Conformers submitted total number: 20 |